From Scores to Preferences: Redefining MOS Benchmarking for Speech Quality Reward Modeling

Assessing the perceptual quality of synthetic speech is crucial for guiding the development and refinement of speech generation models. However, it has traditionally relied on human subjective ratings such as the Mean Opinion Score (MOS), which depend on manual annotations and often suffer from inconsistent rating standards and poor reproducibility. To address these limitations, we introduce MOS-RMBench, a unified benchmark that reformulates diverse MOS datasets into a preference-comparison setting, enabling rigorous evaluation across different datasets. Building on MOS-RMBench, we systematically construct and evaluate three paradigms for reward modeling: scalar reward models, semi-scalar reward models, and generative reward models (GRMs). Our experiments reveal three key findings: (1) scalar models achieve the strongest overall performance, consistently exceeding 74% accuracy; (2) most models perform considerably worse on synthetic speech than on human speech; and (3) all models struggle on pairs with very small MOS differences. To improve performance on these challenging pairs, we propose a MOS-aware GRM that incorporates an MOS-difference-based reward function, enabling the model to adaptively scale rewards according to the difficulty of each sample pair. Experimental results show that the MOS-aware GRM significantly improves fine-grained quality discrimination and narrows the gap with scalar models on the most challenging cases. We hope this work will establish both a benchmark and a methodological framework to foster more rigorous and scalable research in automatic speech quality assessment.

MDAR: A Multi-scene Dynamic Audio Reasoning Benchmark

The ability to reason from audio, including speech, paralinguistic cues, environmental sounds, and music, is essential for AI agents to interact effectively in real-world scenarios. Existing benchmarks mainly focus on static or single-scene settings and do not fully capture scenarios where multiple speakers, unfolding events, and heterogeneous audio sources interact. To address these challenges, we introduce MDAR, a benchmark for evaluating models on complex, multi-scene, and dynamically evolving audio reasoning tasks. MDAR comprises 3,000 carefully curated question-answer pairs linked to diverse audio clips, covering five categories of complex reasoning and spanning three question types. We benchmark 26 state-of-the-art audio language models on MDAR and observe that they exhibit limitations in complex reasoning tasks. On single-choice questions, Qwen2.5-Omni (open-source) achieves 76.67% accuracy, whereas GPT-4o Audio (closed-source) reaches 68.47%; however, GPT-4o Audio substantially outperforms Qwen2.5-Omni on the more challenging multiple-choice and open-ended tasks. Across all three question types, no model achieves 80% performance. These findings underscore the unique challenges posed by MDAR and its value as a benchmark for advancing audio reasoning research.Code and benchmark can be found at https://github.com/luckyerr/MDAR.

Speech-Language Models with Decoupled Tokenizers and Multi-Token Prediction

Speech-language models (SLMs) offer a promising path toward unifying speech and text understanding and generation. However, challenges remain in achieving effective cross-modal alignment and high-quality speech generation. In this work, we systematically investigate the impact of key components (i.e., speech tokenizers, speech heads, and speaker modeling) on the performance of LLM-centric SLMs. We compare coupled, semi-decoupled, and fully decoupled speech tokenizers under a fair SLM framework and find that decoupled tokenization significantly improves alignment and synthesis quality. To address the information density mismatch between speech and text, we introduce multi-token prediction (MTP) into SLMs, enabling each hidden state to decode multiple speech tokens. This leads to up to 12$\times$ faster decoding and a substantial drop in word error rate (from 6.07 to 3.01). Furthermore, we propose a speaker-aware generation paradigm and introduce RoleTriviaQA, a large-scale role-playing knowledge QA benchmark with diverse speaker identities. Experiments demonstrate that our methods enhance both knowledge understanding and speaker consistency.

PDFBench: A Benchmark for De novo Protein Design from Function

In recent years, while natural language processing and multimodal learning have seen rapid advancements, the field of de novo protein design has also experienced significant growth. However, most current methods rely on proprietary datasets and evaluation rubrics, making fair comparisons between different approaches challenging. Moreover, these methods often employ evaluation metrics that capture only a subset of the desired properties of designed proteins, lacking a comprehensive assessment framework. To address these, we introduce PDFBench, the first comprehensive benchmark for evaluating de novo protein design from function. PDFBench supports two tasks: description-guided design and keyword-guided design. To ensure fair and multifaceted evaluation, we compile 22 metrics covering sequence plausibility, structural fidelity, and language-protein alignment, along with measures of novelty and diversity. We evaluate five state-of-the-art baselines, revealing their respective strengths and weaknesses across tasks. Finally, we analyze inter-metric correlations, exploring the relationships between four categories of metrics, and offering guidelines for metric selection. PDFBench establishes a unified framework to drive future advances in function-driven de novo protein design.

Protein Design with Dynamic Protein Vocabulary

Protein design is a fundamental challenge in biotechnology, aiming to design novel sequences with specific functions within the vast space of possible proteins. Recent advances in deep generative models have enabled function-based protein design from textual descriptions, yet struggle with structural plausibility. Inspired by classical protein design methods that leverage natural protein structures, we explore whether incorporating fragments from natural proteins can enhance foldability in generative models. Our empirical results show that even random incorporation of fragments improves foldability. Building on this insight, we introduce ProDVa, a novel protein design approach that integrates a text encoder for functional descriptions, a protein language model for designing proteins, and a fragment encoder to dynamically retrieve protein fragments based on textual functional descriptions. Experimental results demonstrate that our approach effectively designs protein sequences that are both functionally aligned and structurally plausible. Compared to state-of-the-art models, ProDVa achieves comparable function alignment using less than 0.04% of the training data, while designing significantly more well-folded proteins, with the proportion of proteins having pLDDT above 70 increasing by 7.38% and those with PAE below 10 increasing by 9.6%.

Effective Length Extrapolation via Dimension-Wise Positional Embeddings Manipulation

Large Language Models (LLMs) often struggle to process and generate coherent context when the number of input tokens exceeds the pre-trained length. Recent advancements in long-context extension have significantly expanded the context window of LLMs but require expensive overhead to train the large-scale models with longer context. In this work, we propose Dimension-Wise Positional Embeddings Manipulation (DPE), a training-free framework to extrapolate the context window of LLMs by diving into RoPE's different hidden dimensions. Instead of manipulating all dimensions equally, DPE detects the effective length for every dimension and finds the key dimensions for context extension. We reuse the original position indices with their embeddings from the pre-trained model and manipulate the key dimensions' position indices to their most effective lengths. In this way, DPE adjusts the pre-trained models with minimal modifications while ensuring that each dimension reaches its optimal state for extrapolation. DPE significantly surpasses well-known baselines such as YaRN and Self-Extend. DPE enables Llama3-8k 8B to support context windows of 128k tokens without continual training and integrates seamlessly with Flash Attention 2. In addition to its impressive extrapolation capability, DPE also dramatically improves the models' performance within training length, such as Llama3.1 70B, by over 18 points on popular long-context benchmarks RULER. When compared with commercial models, Llama 3.1 70B with DPE even achieves better performance than GPT-4-128K.

Mitigating Object Hallucinations in MLLMs via Multi-Frequency Perturbations

Recently, multimodal large language models (MLLMs) have demonstrated remarkable performance in visual-language tasks. However, the authenticity of the responses generated by MLLMs is often compromised by object hallucinations. We identify that a key cause of these hallucinations is the model's over-susceptibility to specific image frequency features in detecting objects. In this paper, we introduce Multi-Frequency Perturbations (MFP), a simple, cost-effective, and pluggable method that leverages both low-frequency and high-frequency features of images to perturb visual feature representations and explicitly suppress redundant frequency-domain features during inference, thereby mitigating hallucinations. Experimental results demonstrate that our method significantly mitigates object hallucinations across various model architectures. Furthermore, as a training-time method, MFP can be combined with inference-time methods to achieve state-of-the-art performance on the CHAIR benchmark.

The Role of Visual Modality in Multimodal Mathematical Reasoning: Challenges and Insights

Recent research has increasingly focused on multimodal mathematical reasoning, particularly emphasizing the creation of relevant datasets and benchmarks. Despite this, the role of visual information in reasoning has been underexplored. Our findings show that existing multimodal mathematical models minimally leverage visual information, and model performance remains largely unaffected by changes to or removal of images in the dataset. We attribute this to the dominance of textual information and answer options that inadvertently guide the model to correct answers. To improve evaluation methods, we introduce the HC-M3D dataset, specifically designed to require image reliance for problem-solving and to challenge models with similar, yet distinct, images that change the correct answer. In testing leading models, their failure to detect these subtle visual differences suggests limitations in current visual perception capabilities. Additionally, we observe that the common approach of improving general VQA capabilities by combining various types of image encoders does not contribute to math reasoning performance. This finding also presents a challenge to enhancing visual reliance during math reasoning. Our benchmark and code would be available at \href{https://github.com/Yufang-Liu/visual_modality_role}{https://github.com/Yufang-Liu/visual\_modality\_role}.

Towards Economical Inference: Enabling DeepSeek's Multi-Head Latent Attention in Any Transformer-based LLMs

Multi-head Latent Attention (MLA) is an innovative architecture proposed by DeepSeek, designed to ensure efficient and economical inference by significantly compressing the Key-Value (KV) cache into a latent vector. Compared to MLA, standard LLMs employing Multi-Head Attention (MHA) and its variants such as Grouped-Query Attention (GQA) exhibit significant cost disadvantages. Enabling well-trained LLMs (e.g., Llama) to rapidly adapt to MLA without pre-training from scratch is both meaningful and challenging. This paper proposes the first data-efficient fine-tuning method for transitioning from MHA to MLA (MHA2MLA), which includes two key components: for partial-RoPE, we remove RoPE from dimensions of queries and keys that contribute less to the attention scores, for low-rank approximation, we introduce joint SVD approximations based on the pre-trained parameters of keys and values. These carefully designed strategies enable MHA2MLA to recover performance using only a small fraction (0.3% to 0.6%) of the data, significantly reducing inference costs while seamlessly integrating with compression techniques such as KV cache quantization. For example, the KV cache size of Llama2-7B is reduced by 92.19%, with only a 0.5% drop in LongBench performance.

EvoLlama: Enhancing LLMs' Understanding of Proteins via Multimodal Structure and Sequence Representations

Current Large Language Models (LLMs) for understanding proteins primarily treats amino acid sequences as a text modality. Meanwhile, Protein Language Models (PLMs), such as ESM-2, have learned massive sequential evolutionary knowledge from the universe of natural protein sequences. Furthermore, structure-based encoders like ProteinMPNN learn the structural information of proteins through Graph Neural Networks. However, whether the incorporation of protein encoders can enhance the protein understanding of LLMs has not been explored. To bridge this gap, we propose EvoLlama, a multimodal framework that connects a structure-based encoder, a sequence-based protein encoder and an LLM for protein understanding. EvoLlama consists of a ProteinMPNN structure encoder, an ESM-2 protein sequence encoder, a multimodal projector to align protein and text representations and a Llama-3 text decoder. To train EvoLlama, we fine-tune it on protein-oriented instructions and protein property prediction datasets verbalized via natural language instruction templates. Our experiments show that EvoLlama's protein understanding capabilities have been significantly enhanced, outperforming other fine-tuned protein-oriented LLMs in zero-shot settings by an average of 1%-8% and surpassing the state-of-the-art baseline with supervised fine-tuning by an average of 6%. On protein property prediction datasets, our approach achieves promising results that are competitive with state-of-the-art task-specific baselines. We will release our code in a future version.